Article

Automating Gene Expression Annotation for Mouse Embryo

Authors:

Richard Baldock,

Malcolm AtkinsonAuthors Info & Claims

ADMA '09: Proceedings of the 5th International Conference on Advanced Data Mining and Applications

Pages 469 - 478

https://doi.org/10.1007/978-3-642-03348-3_46

Published: 14 August 2009 Publication History

Abstract

It is of high biomedical interest to identify gene interactions and networks that are associated with developmental and physiological functions in the mouse embryo. There are now large datasets with both spatial and ontological annotation of the spatio-temporal patterns of gene-expression that provide a powerful resource to discover potential mechanisms of embryo organisation. Ontological annotation of gene expression consists of labelling images with terms from the anatomy ontology for mouse development. Current annotation is made manually by domain experts. It is both time consuming and costly. In this paper, we present a new data mining framework to automatically annotate gene expression patterns in images with anatomic terms. This framework integrates the images stored in file systems with ontology terms stored in databases, and combines pattern recognition with image processing techniques to identify the anatomical components that exhibit gene expression patterns in images. The experimental result shows the framework works well.

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Cited By

Yaikhom GLiew CHan Lvan Hemert JAtkinson MKrause A(2010)Federated enactment of workflow patternsProceedings of the 16th international Euro-Par conference on Parallel processing: Part I10.5555/1887695.1887731(317-328)Online publication date: 31-Aug-2010
https://dl.acm.org/doi/10.5555/1887695.1887731
Liew CAtkinson Mvan Hemert JHan LHariri SKeahey K(2010)Towards optimising distributed data streaming graphs using parallel streamsProceedings of the 19th ACM International Symposium on High Performance Distributed Computing10.1145/1851476.1851583(725-736)Online publication date: 21-Jun-2010
https://dl.acm.org/doi/10.1145/1851476.1851583

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Information & Contributors

Information

Published In

cover image Guide Proceedings

ADMA '09: Proceedings of the 5th International Conference on Advanced Data Mining and Applications

August 2009

803 pages

ISBN:9783642033476

Editors:
Ronghuai Huang
Knowledge Science & Engineering Institute, School of Education Technology, Beijing Normal University, Beijing, China 100875
,
Qiang Yang
The Hong Kong University of Science and Technology, Clear Water Bay,, Hong Kong
,
Jian Pei
School of Computing Science, Simon Fraser University, Burnaby, Canada V5A 1S6
,
João Gama
Faculty of Economics, University of Porto, Porto, Portugal 4200-465
,
Xiaofeng Meng
School of Information, Zhongguancum, Renmin University, Beijing, China 100872
,
Xue Li
School of Information Technology and Electrical Engineering, The University of Queensland, St. Lucia, Australia 4072

Publisher

Springer-Verlag

Berlin, Heidelberg

Publication History

Published: 14 August 2009

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Cited By

Yaikhom GLiew CHan Lvan Hemert JAtkinson MKrause A(2010)Federated enactment of workflow patternsProceedings of the 16th international Euro-Par conference on Parallel processing: Part I10.5555/1887695.1887731(317-328)Online publication date: 31-Aug-2010
https://dl.acm.org/doi/10.5555/1887695.1887731
Liew CAtkinson Mvan Hemert JHan LHariri SKeahey K(2010)Towards optimising distributed data streaming graphs using parallel streamsProceedings of the 19th ACM International Symposium on High Performance Distributed Computing10.1145/1851476.1851583(725-736)Online publication date: 21-Jun-2010
https://dl.acm.org/doi/10.1145/1851476.1851583

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